Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgtcataagctacatggtttcttacaattttgagattctgcaattttattgctgcatactttcttctggcttttgtgactgagactcaacaacactcttgaatggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G26990.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 6
gtaaatgtcataagctacatggtttcttacaattttgagattctgcaattttattgctgcatactttcttctggcttttgtgactgagactcaaca-acactcttgaatgga-------tgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
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----------------------tcatttatagtactatgttgacccatattgg--gttcaaacctttctcctgccttaggcagttagcatgaaatgcactttctgaagtgaacctctgctgcagGAACTATATACAAAAGCTCTTTCCATCAAATCAGCGATACCTCATCCAAGAATCATGGGTATAATTCGTGAATGTGGTGGAAAGATGCACATGGCTGAGA
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 6
gtaaatgtcataagctacatggtttcttacaattttgagattctgcaattttattgctgcatactttcttctggcttttgtgactgagactcaacaacactcttgaatggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
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------gctctaatataagtgttgtgtattcagtacaaaattcctgctttacattgttgtttgcttg-----aaatgcttaatttgaatctgaagtgaaatgctgc-----tgcagGAATTGTATCAAAGGGCTCTTTCCATCAAATCAGCGATACCTCATCCAAGAATCATGGGTATAATTCGCGAGTGTGGTGGAAAGATGCATATGGCTGAGA
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G132804_T01 (Zea mays), 3'ss of exon 6
gtaaatgtcataagctacatggtttcttacaattttgagattc-tgcaattttattgctgcatactttcttctggcttttgtgactgagactcaacaacactcttgaatggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
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-----------------tttatttatttagtattgtgtattcagtgcaaaaaccctgctttacattgttggttgcttgaaatgcttaatttgaatctgaagtgaattgctgctgcagGAATTGTATCAAAGGGCTCTTTCCATCAAATCGGCGATACCACATCCAAGAATCATGGGTATAATTCGTGAGTGTGGTGGGAAGATGCATATGGCTGAGA
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 6
gtaaatgtcataagctacatggtttcttacaattttgagattctgcaattttat-tgctgcatactttcttctggcttttgtgactgagactcaacaacactcttgaatggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
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----atttttctggagtcataacttcc-atacatttg----cctgctattttgtatgctgtatcaattgtattgact-----gagttttatccaactaca---tggattaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGAATAATGGGGATAATTCATGAATGTGGTGGGAAAATGCATATGGCAGAGCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|86049784|gb|DR345539.1|DR345539EST: CAATTGAAATTCAGATTTACACTGAAACGAAGGACAACAAAAAGCTTAAG CAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGG
genomic: CAATTGAAATTCAGATTTACACTGAAACGAAGGACAACAAAAAGCTTAAGgtaaatgtca ... atggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgtcataagctacatggtttcttacaattttgagattctgcaattttattgctgcatactttcttctggcttttgtgactgagactcaacaacactcttgaatggatgcagCAACTATACCATAAGGCACTTGCCATCAAGTCTGCCATACCTCATCCTAGGATCATGGGTATAATCCGCGAGTGTGGTGGAAAAATGCACATGGCAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA